Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation
Cassava (Manihot esculenta Crantz) is an important staple food crop in Africa and South America; however, ubiquitous deleterious mutations may severely decrease its fitness. To evaluate these deleterious mutations, we constructed a cassava haplotype map through deep sequencing 241 diverse accessions...
| Main Authors: | , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Springer
2017
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/81024 |
| _version_ | 1855539784838021120 |
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| author | Ramu, P. Esuma, W. Kawuki, R.S. Rabbi, Ismail Y. Egesi, Chiedozie N. Bredeson, J.V. Bart, R.S. Verma, J. Buckler, E.S. Lu, F |
| author_browse | Bart, R.S. Bredeson, J.V. Buckler, E.S. Egesi, Chiedozie N. Esuma, W. Kawuki, R.S. Lu, F Rabbi, Ismail Y. Ramu, P. Verma, J. |
| author_facet | Ramu, P. Esuma, W. Kawuki, R.S. Rabbi, Ismail Y. Egesi, Chiedozie N. Bredeson, J.V. Bart, R.S. Verma, J. Buckler, E.S. Lu, F |
| author_sort | Ramu, P. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Cassava (Manihot esculenta Crantz) is an important staple food crop in Africa and South America; however, ubiquitous deleterious mutations may severely decrease its fitness. To evaluate these deleterious mutations, we constructed a cassava haplotype map through deep sequencing 241 diverse accessions and identified >28 million segregating variants. We found that (i) although domestication has modified starch and ketone metabolism pathways to allow for human consumption, the concomitant bottleneck and clonal propagation have resulted in a large proportion of fixed deleterious amino acid changes, increased the number of deleterious alleles by 26%, and shifted the mutational burden toward common variants; (ii) deleterious mutations have been ineffectively purged, owing to limited recombination in the cassava genome; (iii) recent breeding efforts have maintained yield by masking the most damaging recessive mutations in the heterozygous state but have been unable to purge the mutation burden; such purging should be a key target in future cassava breeding. |
| format | Journal Article |
| id | CGSpace81024 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2017 |
| publishDateRange | 2017 |
| publishDateSort | 2017 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace810242025-11-11T10:47:11Z Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation Ramu, P. Esuma, W. Kawuki, R.S. Rabbi, Ismail Y. Egesi, Chiedozie N. Bredeson, J.V. Bart, R.S. Verma, J. Buckler, E.S. Lu, F genomics plant genetics population genetics cassava deleterious mutations haplotype map clonal propagation Cassava (Manihot esculenta Crantz) is an important staple food crop in Africa and South America; however, ubiquitous deleterious mutations may severely decrease its fitness. To evaluate these deleterious mutations, we constructed a cassava haplotype map through deep sequencing 241 diverse accessions and identified >28 million segregating variants. We found that (i) although domestication has modified starch and ketone metabolism pathways to allow for human consumption, the concomitant bottleneck and clonal propagation have resulted in a large proportion of fixed deleterious amino acid changes, increased the number of deleterious alleles by 26%, and shifted the mutational burden toward common variants; (ii) deleterious mutations have been ineffectively purged, owing to limited recombination in the cassava genome; (iii) recent breeding efforts have maintained yield by masking the most damaging recessive mutations in the heterozygous state but have been unable to purge the mutation burden; such purging should be a key target in future cassava breeding. 2017-06 2017-05-15T09:35:21Z 2017-05-15T09:35:21Z Journal Article https://hdl.handle.net/10568/81024 en Open Access application/pdf Springer Ramu, P., Esuma, W., Kawuki, R., Rabbi, I.Y., Egesi, C., Bredeson, J.V., ... & Lu, F. (2017). Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation. Nature Genetics. |
| spellingShingle | genomics plant genetics population genetics cassava deleterious mutations haplotype map clonal propagation Ramu, P. Esuma, W. Kawuki, R.S. Rabbi, Ismail Y. Egesi, Chiedozie N. Bredeson, J.V. Bart, R.S. Verma, J. Buckler, E.S. Lu, F Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title | Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title_full | Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title_fullStr | Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title_full_unstemmed | Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title_short | Cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| title_sort | cassava haplotype map highlights fixation of deleterious mutations during clonal propagation |
| topic | genomics plant genetics population genetics cassava deleterious mutations haplotype map clonal propagation |
| url | https://hdl.handle.net/10568/81024 |
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